Sequence
atgc intronic sequence ATGC exonic sequence...atcttctcaagaactgggtgtactgatgtttttaacataaaaatccttaaaaaaatgatgagctttggagcttaatacagatgagttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G059020_T01 (Zea mays), 3'ss of exon 7
atcttctcaagaactgggtgtactgatgtttttaacataaaaatccttaaaaaaat--gatgagctttggagct-taatacagatg----agttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG
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-----------------gtacatttccgtttagaaatgcagaattcttactaatatctattgtctttcctagctctaatgcttgtccaacacttctgctatccttagATCCGCCCAGATAGGCAAACCTTGTACTGGAGTGCCACATGGCCTAGAGAAGTTGAAGCCTTAGCAAGACAATTTCTACAAAATCCTTACAAG
upper sequence: Vv17s0000g09130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G02590.1 (Glycine max), 3'ss of exon 5
atcttctcaagaactgggtgta-ctgatgtttttaacataaaaatccttaaaaaaatg-atgagctttggagcttaatacagatgagttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG
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agaactattgtcactggatatgtcctatgtttgtg-tgtgattttcatactgattttgtataagagactcggttagatacatttgtgatttga-aataccagATTCGACCAGATAGGCAAACACTATTATGGAGTGCTACATGGCCAAGGGAGGTTGAAACTCTGGCAAGGCAGTTTCTGCGCAACCCATACAAG
upper sequence: Vv17s0000g09130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G09270.1 (Glycine max), 3'ss of exon 5
atcttctca--agaactgggtgtact-gatgtttttaacataaaaatccttaaaaaaatgatgagctttggagcttaatacagatgagttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG
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ttcttaagatgagaactattctcactagatatgtcctatgtgtgtgggtgtgtgattttaatacattttgta--tagttacatttgtgatttga-aataccagATTCGACCAGATAGGCAAACATTATTATGGAGTGCTACATGGCCAAGGGATGTTGAAACTCTGGCAAGGCAGTTTCTGCACAACCCATACAAG
upper sequence: Vv17s0000g09130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G63120.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------------atcttc-tcaagaactgggtgtactgatgtttttaacataaaaatccttaaaaaaatgatgagctttggagctta-atacaga---tgag------ttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG
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gtatgtttgtactttctccaaagctatcatgtagtgtctttaaggaaagggtggttgaccaacattattagtcgatagattttatcttcccagtttattgttctgttgctaaataagaaccatcacggcttttgttcagaacttgagattgttccttatttttcacagATCCGACCTGATAGACAAACACTTCTTTGGAGTGCAACATGGCCACGAGAGGTTGAAACTCTTGCCAGGCAGTTTCTACGAGATCCATATAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|37188613|gb|CF607962.1|CF607962EST: GAATGTTAGACATGGGATTTGAACCTCAGATCAGGAAAATTATTTCCCAA ATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAG
genomic: GAATGTTAGACATGGGATTTGAACCTCAGATCAGGAAAATTATTTCCCAAgtatggtttc ... ttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttaaaaaaatgatgagctttggagcttaatacagatgagttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG
tgttaat putative branch site (score: 3)
ttctgtt CT-rich tract
aaaaatgat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttctcaagaactgggtgtactgatgtttttaacataaaaatccttaaaaaaatgatgagctttggagcttaatacagatgagttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - -caagaac
- - - - - - - tgggtgt
- - - - - - - - - - - ctgatgt
- - - - - - - - - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atacaga